InnateDB: Systems Biology of the Innate Immune Response

Mus musculus Protein: Ddx1

Summary

InnateDB Protein

IDBP-128976.6

Last Modified

2014-10-13 [Report errors or provide feedback]

Gene Symbol

Ddx1

Protein Name

DEAD (Asp-Glu-Ala-Asp) box polypeptide 1

Synonyms

AA409185; DBP-RB;

Species

Mus musculus

Ensembl Protein

ENSMUSP00000065987

InnateDB Gene

IDBG-128974 (Ddx1)

Protein Structure

UniProt Annotation

Function

Acts as an ATP-dependent RNA helicase, able to unwind both RNA-RNA and RNA-DNA duplexes. Possesses 5' single-stranded RNA overhang nuclease activity. Possesses ATPase activity on various RNA, but not DNA polynucleotides. May play a role in RNA clearance at DNA double-strand breaks (DSBs), thereby facilitating the template-guided repair of transcriptionally active regions of the genome. Together with RELA, acts as a coactivator to enhance NF-kappa-B-mediated transcriptional activation. Acts as a positive transcriptional regulator of cyclin CCND2 expression. Binds to the cyclin CCND2 promoter region. Associates with chromatin at the NF- kappa-B promoter region via association with RELA. Binds to poly(A) RNA. May be involved in 3'-end cleavage and polyadenylation of pre-mRNAs. Component of the tRNA-splicing ligase complex required to facilitate the enzymatic turnover of catalytic subunit RTCB: together with archease (ZBTB8OS), acts by facilitating the guanylylation of RTCB, a key intermediate step in tRNA ligation. {ECO:0000269PubMed:19398953}.

Subcellular Localization

Nucleus {ECO:0000250}. Cytoplasm {ECO:0000250}. Cytoplasmic granule {ECO:0000250}. Note=Localized with MBNL1, TIAL1 and YBX1 in stress granules upon stress. Localized with CSTF2 in cleavage bodies. Forms large aggregates called DDX1 bodies. Relocalized into multiple foci (IR-induced foci or IRIF) after IR treatment, a process that depends on the presence of chromosomal DNA and/or RNA-DNA duplexes. Relocalized at sites of DNA double-strand breaks (DSBs) in an ATM-dependent manner after IR treatment. Colocalized with RELA in the nucleus upon TNF-alpha induction. Enters into the nucleus in case of active transcription while it accumulates in cytosol when transcription level is low (By similarity). {ECO:0000250}.

Disease Associations

Tissue Specificity

Testis-specific. Expressed in the germ line stem cells, spermatogonia and spermatocytes of the testis. Also expressed in the seminoma and nonseminoma types of testicular germ cell tumors (TGCTs) (at protein level). {ECO:0000269PubMed:19398953}.

Comments

Interactions

Number of Interactions

This gene and/or its encoded proteins are associated with 11 experimentally validated interaction(s) in this database.
They are also associated with 74 interaction(s) predicted by orthology.

Experimentally validated
Total	11 [view]
Protein-Protein	11 [view]
Protein-DNA	0
Protein-RNA	0
DNA-DNA	0
RNA-RNA	0
DNA-RNA	0

Predicted by orthology
Total	74 [view]

Gene Ontology

Molecular Function

Accession	GO Term
GO:0003676	nucleic acid binding
GO:0003677	DNA binding
GO:0003682	chromatin binding
GO:0003712	transcription cofactor activity
GO:0003725	double-stranded RNA binding
GO:0004386	helicase activity
GO:0004518	nuclease activity
GO:0004527	exonuclease activity
GO:0005515	protein binding
GO:0005524	ATP binding
GO:0008026	ATP-dependent helicase activity
GO:0008143	poly(A) binding
GO:0033677	DNA/RNA helicase activity
GO:0044822	poly(A) RNA binding

Biological Process

GO:0006200	ATP catabolic process
GO:0006302	double-strand break repair
GO:0006351	transcription, DNA-templated
GO:0006355	regulation of transcription, DNA-templated
GO:0006397	mRNA processing
GO:0007275	multicellular organismal development
GO:0009615	response to virus
GO:0032508	DNA duplex unwinding
GO:0043330	response to exogenous dsRNA
GO:0045087	innate immune response (InnateDB)
GO:0090305	nucleic acid phosphodiester bond hydrolysis

Cellular Component

GO:0005634	nucleus
GO:0005737	cytoplasm
GO:0010494	cytoplasmic stress granule
GO:0016020	membrane
GO:0030529	ribonucleoprotein complex
GO:0071920	cleavage body
GO:0072669	tRNA-splicing ligase complex

Protein Structure and Domains

PDB ID

MGI:2144727

InterPro

IPR001650 Helicase, C-terminal
IPR001870 B30.2/SPRY domain
IPR003877 SPla/RYanodine receptor SPRY
IPR008985 Concanavalin A-like lectin/glucanases superfamily
IPR011545 DNA/RNA helicase, DEAD/DEAH box type, N-terminal
IPR014001 Helicase, superfamily 1/2, ATP-binding domain
IPR014014 RNA helicase, DEAD-box type, Q motif
IPR018355 SPla/RYanodine receptor subgroup
IPR027417 P-loop containing nucleoside triphosphate hydrolase

PFAM

PF00271
PF00622
PF00270

PRINTS

PIRSF

SMART

SM00490
SM00449
SM00487

TIGRFAMs

Post-translational Modifications

Modification

Cross-References

SwissProt

Q91VR5